Gene detail

Detailed information of OS493_006138-T1 in Lophelia pertusa

Genomic Location: scaffold_13:286946...289095
NR annotation: KAJ7393172.1, Rho GTPase [Desmophyllum pertusum]
Species Lophelia pertusa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q2KJ93	Cell division control protein 42 homolog OS=Bos taurus OX=9913 GN=CDC42 PE=1 SV=1
P60952	Cell division control protein 42 homolog OS=Canis lupus familiaris OX=9615 GN=CDC42 PE=2 SV=2
P60953	Cell division control protein 42 homolog OS=Homo sapiens OX=9606 GN=CDC42 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000430 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00071 all species →	Ras	Ras family	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR037874 all species →	Family	Cdc42	Interproscan
IPR001806 all species →	Family	Small GTPase	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR005225 all species →	Domain	Small GTP-binding protein domain	Interproscan
IPR003578 all species →	Family	Small GTPase Rho	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24072 all species →	RHO FAMILY GTPASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003924 all species →	Molecular Function	GTPase activity	Interproscan
GO:0005525 all species →	Molecular Function	GTP binding	Interproscan
GO:0006897 all species →	Biological Process	endocytosis	Interproscan
GO:0007163 all species →	Biological Process	establishment or maintenance of cell polarity	Interproscan
GO:0007264 all species →	Biological Process	small GTPase-mediated signal transduction	Interproscan
GO:0019901 all species →	Molecular Function	protein kinase binding	Interproscan
GO:0032488 all species →	Biological Process	Cdc42 protein signal transduction	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K04393	CDC42; cell division control protein 42	-	GTP-binding proteins	ko04031	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_006138-T1 across 110 RNA-seq samples of Lophelia pertusa. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

110Samples

110TPM > 0

7Conditions

62.9Max TPM

30.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	29.82	43.59
polyp at pH7 6	18	18	32.67	51.09
coral polyp · control treatment	16	16	37.60	62.92
coral polyp · oil and dispersant treatment	16	16	30.87	44.20
coral polyp · oil treatment	16	16	29.32	51.34
coral polyp · dispersant treatment	16	16	25.78	44.80
Polyp	10	10	23.94	41.06

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.59
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.40
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.38
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.06
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.64
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.15
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.93
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.01
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.45
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.88
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.52
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.32
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.85
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.85
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.08
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.66
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.90
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.06
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.09
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.49
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.72
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.56
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.69
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.81
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.82
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.50
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.97
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.91
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.02
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.94
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.47
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.33
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.53
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.30
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.68
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.24
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	62.92
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.73
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.73
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	51.28
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.10
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.87
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.70
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.25
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.63
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.56
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.04
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.56
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.85
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.79
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.30
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.29
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.20
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.18
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.57
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.83
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.64
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.49
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.09
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.93
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.33
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.96
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.89
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.39
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.64
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.39
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.82
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.53
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.34
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.11
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.09
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.00
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.17
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.73
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.29
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.96
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.30
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.36
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.10
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.56
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.54
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.55
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.27
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.74
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.80
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.81
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.58
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.47
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.23
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.06
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.19
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.17
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.72
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.41
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.23
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.55
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.70
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.05
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.44
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.08
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	41.06
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	39.57
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	29.21
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	23.91
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	21.43
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	20.81
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	19.80
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	16.36
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	13.87
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	13.39

Source: CnidoSite RNA-seq expression matrices (LPERT_TPM, StringTie quantification over 110 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.